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    Rnf38 ring finger protein 38 [ Mus musculus (house mouse) ]

    Gene ID: 73469, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Rnf38provided by MGI
    Official Full Name
    ring finger protein 38provided by MGI
    Primary source
    MGI:MGI:1920719
    See related
    Ensembl:ENSMUSG00000035696 AllianceGenome:MGI:1920719
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Oip1; 1700065B19Rik; 2610202O07Rik
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in protein ubiquitination. Predicted to be located in nucleoplasm and sperm flagellum. Is expressed in central nervous system; dorsal root ganglion; heart; limb; and sensory organ. Orthologous to human RNF38 (ring finger protein 38). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis adult (RPKM 139.9), whole brain E14.5 (RPKM 39.1) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rnf38 in Genome Data Viewer
    Location:
    4 B1; 4 23.13 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (44126210..44233929, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (44126210..44233905, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_10067 Neighboring gene STARR-positive B cell enhancer ABC_E7965 Neighboring gene glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase Neighboring gene prothymosin alpha, pseudogene 2 Neighboring gene STARR-positive B cell enhancer ABC_E10233 Neighboring gene STARR-positive B cell enhancer mm9_chr4:44186052-44186353 Neighboring gene STARR-positive B cell enhancer mm9_chr4:44212798-44213099 Neighboring gene microRNA 5106 Neighboring gene predicted gene, 54218 Neighboring gene STARR-seq mESC enhancer starr_10071 Neighboring gene STARR-seq mESC enhancer starr_10072 Neighboring gene STARR-positive B cell enhancer ABC_E6169 Neighboring gene maternal embryonic leucine zipper kinase Neighboring gene STARR-seq mESC enhancer starr_10073

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Novel RING finger protein OIP1 binds to conserved amino acid repeats in sperm tail protein ODF1. Zarsky HA, et al. Biol Reprod, 2003 Feb. PMID 12533418, Free PMC Article
    2. Spatiotemporal gene expression patterns reveal molecular relatedness between retinal laminae. Jiang D, et al. J Comp Neurol, 2020 Apr 1. PMID 31609468, Free PMC Article
    3. Identification and analysis of genes from the mouse otic vesicle and their association with developmental subprocesses through in situ hybridization. Powles N, et al. Dev Biol, 2004 Apr 1. PMID 15031102
    4. Targeting a complex transcriptome: the construction of the mouse full-length cDNA encyclopedia. Carninci P, et al. Genome Res, 2003 Jun. PMID 12819125, Free PMC Article
    5. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in sperm flagellum ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RNF38
    Names
    RING-type E3 ubiquitin transferase RNF38
    NP_001034082.1
    NP_001342110.1
    NP_001366503.1
    NP_001366504.1
    NP_001366505.1
    NP_001366506.1
    NP_001366507.1
    NP_001366508.1
    NP_001366509.1
    NP_001366510.1
    NP_780410.2
    XP_006538363.1
    XP_006538364.1
    XP_006538368.1
    XP_011248417.2
    XP_011248418.2
    XP_011248419.2
    XP_030109694.1
    XP_036020382.1
    XP_036020383.1
    XP_036020384.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001038993.5 → NP_001034082.1  E3 ubiquitin-protein ligase RNF38 isoform 2

      See identical proteins and their annotated locations for NP_001034082.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2), as well as variants 3-8, encodes isoform 2.
      Source sequence(s)
      AL732563, AL805952
      Consensus CDS
      CCDS18123.1
      UniProtKB/TrEMBL
      Q3UH35
      Related
      ENSMUSP00000038477.9, ENSMUST00000045793.15
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    2. NM_001355181.2 → NP_001342110.1  E3 ubiquitin-protein ligase RNF38 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3), as well as variants 2 and 4-8, encodes isoform 2.
      Source sequence(s)
      AL732563, AL805952
      Consensus CDS
      CCDS18123.1
      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    3. NM_001379574.1 → NP_001366503.1  E3 ubiquitin-protein ligase RNF38 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4), as well as variants 2, 3, and 5-8, encodes isoform 2.
      Source sequence(s)
      AL732563, AL805952
      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    4. NM_001379575.1 → NP_001366504.1  E3 ubiquitin-protein ligase RNF38 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5), as well as variants 2-4 and 6-8, encodes isoform 2.
      Source sequence(s)
      AL732563, AL805952
      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    5. NM_001379576.1 → NP_001366505.1  E3 ubiquitin-protein ligase RNF38 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6), as well as variants 2-5, 7, and 8, encodes isoform 2.
      Source sequence(s)
      AL732563, AL805952
      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    6. NM_001379577.1 → NP_001366506.1  E3 ubiquitin-protein ligase RNF38 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7), as well as variants 2-6 and 8, encodes isoform 2.
      Source sequence(s)
      AL732563, AL805952
      UniProtKB/TrEMBL
      Q3UH35
      Related
      ENSMUSP00000099998.3, ENSMUST00000102934.9
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    7. NM_001379578.1 → NP_001366507.1  E3 ubiquitin-protein ligase RNF38 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8), as well as variants 2-7, encodes isoform 2.
      Source sequence(s)
      AL732563, AL805952
      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    8. NM_001379579.1 → NP_001366508.1  E3 ubiquitin-protein ligase RNF38 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) represents the longest transcript and encodes the longest isoform (3).
      Source sequence(s)
      AL732563, AL805952
      Conserved Domains (1) summary
      cd16472
      Location:522 → 566
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    9. NM_001379580.1 → NP_001366509.1  E3 ubiquitin-protein ligase RNF38 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL732563, AL805952
      Conserved Domains (1) summary
      cd16472
      Location:518 → 562
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    10. NM_001379581.1 → NP_001366510.1  E3 ubiquitin-protein ligase RNF38 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL732563, AL805952
      Conserved Domains (1) summary
      cd16472
      Location:459 → 503
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    11. NM_175201.7 → NP_780410.2  E3 ubiquitin-protein ligase RNF38 isoform 1

      See identical proteins and their annotated locations for NP_780410.2

      Status: VALIDATED

      Source sequence(s)
      AL732563, AL805952
      Consensus CDS
      CCDS18122.1
      UniProtKB/Swiss-Prot
      Q6P5B1, Q8BI21
      Related
      ENSMUSP00000095702.3, ENSMUST00000098098.9
      Conserved Domains (1) summary
      cd16472
      Location:409 → 453
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      44126210..44233929 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011250115.4 → XP_011248417.2  E3 ubiquitin-protein ligase RNF38 isoform X1

      Conserved Domains (1) summary
      cd16472
      Location:568 → 612
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    2. XM_011250117.4 → XP_011248419.2  E3 ubiquitin-protein ligase RNF38 isoform X4

      Conserved Domains (1) summary
      cd16472
      Location:534 → 578
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    3. XM_011250116.4 → XP_011248418.2  E3 ubiquitin-protein ligase RNF38 isoform X2

      Conserved Domains (1) summary
      cd16472
      Location:539 → 583
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    4. XM_036164489.1 → XP_036020382.1  E3 ubiquitin-protein ligase RNF38 isoform X7

      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    5. XM_036164490.1 → XP_036020383.1  E3 ubiquitin-protein ligase RNF38 isoform X7

      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    6. XM_030253834.2 → XP_030109694.1  E3 ubiquitin-protein ligase RNF38 isoform X3

      Conserved Domains (1) summary
      cd16472
      Location:538 → 582
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    7. XM_006538300.5 → XP_006538363.1  E3 ubiquitin-protein ligase RNF38 isoform X5

      Conserved Domains (1) summary
      cd16472
      Location:430 → 474
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    8. XM_036164491.1 → XP_036020384.1  E3 ubiquitin-protein ligase RNF38 isoform X7

      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    9. XM_006538305.4 → XP_006538368.1  E3 ubiquitin-protein ligase RNF38 isoform X7

      See identical proteins and their annotated locations for XP_006538368.1

      UniProtKB/TrEMBL
      Q3UH35
      Conserved Domains (1) summary
      cd16472
      Location:377 → 421
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

    10. XM_006538301.4 → XP_006538364.1  E3 ubiquitin-protein ligase RNF38 isoform X6

      Conserved Domains (1) summary
      cd16472
      Location:425 → 469
      RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BI21.2 GenPept UniProtKB/Swiss-Prot:Q8BI21

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